CRAN Package Check Results for Package insideRODE

Last updated on 2014-08-21 07:49:14.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2.0 1.34 68.77 70.10 NOTE
r-devel-linux-x86_64-debian-gcc 2.0 1.22 67.94 69.16 NOTE
r-devel-linux-x86_64-fedora-clang 2.0 145.16 NOTE
r-devel-linux-x86_64-fedora-gcc 2.0 135.42 NOTE
r-devel-osx-x86_64-clang 2.0 111.88 NOTE
r-devel-windows-ix86+x86_64 2.0 4.00 85.00 89.00 NOTE
r-patched-linux-x86_64 2.0 1.26 71.22 72.48 NOTE
r-patched-solaris-sparc 2.0 785.20 NOTE
r-patched-solaris-x86 2.0 137.50 NOTE
r-release-linux-ix86 2.0 2.02 83.64 85.66 NOTE
r-release-linux-x86_64 2.0 1.30 70.12 71.42 NOTE
r-release-osx-x86_64-mavericks 2.0 NOTE
r-release-osx-x86_64-snowleopard 2.0 NOTE
r-release-windows-ix86+x86_64 2.0 5.00 79.00 84.00 ERROR
r-oldrel-windows-ix86+x86_64 2.0 5.00 90.00 95.00 NOTE

Check Details

Version: 2.0
Check: dependencies in R code
Result: NOTE
    'library' or 'require' calls to packages already attached by Depends:
     ‘compiler’ ‘deSolve’ ‘lattice’ ‘nlme’
     Please remove these calls from your code.
    See the information on DESCRIPTION files in the chapter ‘Creating R
    packages’ of the ‘Writing R Extensions’ manual.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-osx-x86_64-clang, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-ix86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-osx-x86_64-snowleopard, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 2.0
Check: R code for possible problems
Result: NOTE
    NB: .First.lib is obsolete and will not be used in R >= 3.0.0
    File ‘insideRODE/R/zzz.r’:
     .First.lib calls:
     require(nlme)
     require(lattice)
     require(deSolve)
     require(compiler)
    
    Package startup functions should not change the search path.
    See section ‘Good practice’ in '?.onAttach'.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-osx-x86_64-clang, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-ix86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-osx-x86_64-snowleopard, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 2.0
Check: Rd files
Result: NOTE
    prepare_Rd: cfLSODA.Rd:89-90: Dropping empty section \note
    prepare_Rd: cfLSODA.Rd:87-88: Dropping empty section \seealso
    prepare_Rd: cfLSODE.Rd:68-69: Dropping empty section \note
    prepare_Rd: cfLSODE.Rd:66-67: Dropping empty section \seealso
    prepare_Rd: cfODE.Rd:70-71: Dropping empty section \note
    prepare_Rd: cfODE.Rd:68-69: Dropping empty section \seealso
    prepare_Rd: cfVODE.Rd:69-70: Dropping empty section \note
    prepare_Rd: cfVODE.Rd:67-68: Dropping empty section \seealso
    prepare_Rd: cpLSODA.Rd:162-163: Dropping empty section \note
    prepare_Rd: cpLSODA.Rd:160-161: Dropping empty section \seealso
    prepare_Rd: cpLSODE.Rd:67-68: Dropping empty section \note
    prepare_Rd: cpLSODE.Rd:65-66: Dropping empty section \seealso
    prepare_Rd: cpODE.Rd:71-72: Dropping empty section \note
    prepare_Rd: cpODE.Rd:69-70: Dropping empty section \seealso
    prepare_Rd: cpVODE.Rd:68-69: Dropping empty section \note
    prepare_Rd: cpVODE.Rd:66-67: Dropping empty section \seealso
    prepare_Rd: insideRODE-package.Rd:40-42: Dropping empty section \references
    prepare_Rd: nlmLSODA.Rd:88-89: Dropping empty section \note
    prepare_Rd: nlmLSODA.Rd:86-87: Dropping empty section \seealso
    prepare_Rd: nlmLSODAcp.Rd:60-61: Dropping empty section \note
    prepare_Rd: nlmLSODAcp.Rd:58-59: Dropping empty section \seealso
    prepare_Rd: nlmLSODE.Rd:61-62: Dropping empty section \note
    prepare_Rd: nlmLSODE.Rd:59-60: Dropping empty section \seealso
    prepare_Rd: nlmLSODEcp.Rd:61-62: Dropping empty section \note
    prepare_Rd: nlmLSODEcp.Rd:59-60: Dropping empty section \seealso
    prepare_Rd: nlmODE.Rd:63-64: Dropping empty section \note
    prepare_Rd: nlmODE.Rd:61-62: Dropping empty section \seealso
    prepare_Rd: nlmODEcp.Rd:63-64: Dropping empty section \note
    prepare_Rd: nlmODEcp.Rd:61-62: Dropping empty section \seealso
    prepare_Rd: nlmVODE.Rd:61-62: Dropping empty section \note
    prepare_Rd: nlmVODE.Rd:59-60: Dropping empty section \seealso
    prepare_Rd: nlmVODEcp.Rd:61-62: Dropping empty section \note
    prepare_Rd: nlmVODEcp.Rd:59-60: Dropping empty section \seealso
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-osx-x86_64-clang, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-ix86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-osx-x86_64-snowleopard, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 2.0
Check: Rd line widths
Result: NOTE
    Rd file 'cfLSODA.Rd':
     \usage lines wider than 90 characters:
     cfLSODA(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, dllname = NULL, hmin = 0, hm ... [TRUNCATED]
    
    Rd file 'cfLSODE.Rd':
     \usage lines wider than 90 characters:
     cfLSODE(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, dllname = NULL, hmin = 0, hmax = ... [TRUNCATED]
    
    Rd file 'cfODE.Rd':
     \usage lines wider than 90 characters:
     cfODE(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, dllname = NULL, hmin = 0, hmax = I ... [TRUNCATED]
    
    Rd file 'cfVODE.Rd':
     \usage lines wider than 90 characters:
     cfVODE(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, dllname = NULL, hmin = 0, hmax = ... [TRUNCATED]
    
    Rd file 'cpLSODA.Rd':
     \usage lines wider than 90 characters:
     cpLSODA(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, dllname = NULL, hmin = 0, hm ... [TRUNCATED]
    
    Rd file 'cpLSODE.Rd':
     \usage lines wider than 90 characters:
     cpLSODE(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, dllname = NULL, hmin = 0, hmax = ... [TRUNCATED]
    
    Rd file 'cpODE.Rd':
     \usage lines wider than 90 characters:
     cpODE(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, dllname = NULL, hmin = 0, hmax = I ... [TRUNCATED]
    
    Rd file 'cpVODE.Rd':
     \usage lines wider than 90 characters:
     cpVODE(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, dllname = NULL, hmin = 0, hmax = ... [TRUNCATED]
    
    Rd file 'nlmLSODA.Rd':
     \usage lines wider than 90 characters:
     nlmLSODA(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, hmin = 0, hmax = Inf)
    
    Rd file 'nlmLSODAcp.Rd':
     \usage lines wider than 90 characters:
     nlmLSODAcp(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, hmin = 0, hmax = Inf)
    
    Rd file 'nlmLSODE.Rd':
     \usage lines wider than 90 characters:
     nlmLSODE(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, hmin = 0, hmax = Inf)
    
    Rd file 'nlmLSODEcp.Rd':
     \usage lines wider than 90 characters:
     nlmLSODEcp(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, hmin = 0, hmax = Inf)
    
    Rd file 'nlmODE.Rd':
     \usage lines wider than 90 characters:
     nlmODE(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, hmin = 0, hmax = Inf)
    
    Rd file 'nlmODEcp.Rd':
     \usage lines wider than 90 characters:
     nlmODEcp(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, hmin = 0, hmax = Inf)
    
    Rd file 'nlmVODE.Rd':
     \usage lines wider than 90 characters:
     nlmVODE(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, hmin = 0, hmax = Inf)
    
    Rd file 'nlmVODEcp.Rd':
     \usage lines wider than 90 characters:
     nlmVODEcp(model, data, LogParms = TRUE, JAC = FALSE, SEQ = FALSE,rtol = 1e-4, atol = 1e-4, tcrit = NULL, hmin = 0, hmax = Inf)
    
    These lines will be truncated in the PDF manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Version: 2.0
Check: examples
Result: ERROR
    Running examples in 'insideRODE-Ex.R' failed
    The error most likely occurred in:
    
    > ### Name: nlmLSODA
    > ### Title: LSODA Solver for NLME
    > ### Aliases: nlmLSODA
    > ### Keywords: math
    >
    > ### ** Examples
    >
    > ####################################################################
    > #general model from nlmeODE package
    > #nlmLSODA USE ACCORDING FUNCTIONS
    > ####################################################################
    > rm(list=ls())
    > require(insideRODE)
    >
    > data(Theoph)# examples from nlmeODE
    > TheophODE <- Theoph
    > TheophODE$Dose[TheophODE$Time!=0] <- 0
    > TheophODE$Cmt <- rep(1,dim(TheophODE)[1])
    >
    > # model files
    > OneComp <- list(DiffEq=list(
    + dy1dt = ~ -ka*y1 ,
    + dy2dt = ~ ka*y1-ke*y2),
    + ObsEq=list(
    + c1 = ~ 0,
    + c2 = ~ y2/CL*ke),
    + Parms=c("ka","ke","CL"),
    + States=c("y1","y2"),
    + Init=list(0,0))
    >
    > TheophModel <- nlmLSODA(OneComp,TheophODE) #ode solver
    > Theoph.nlme <- nlme(conc ~ TheophModel(ka,ke,CL,Time,Subject),
    + data = TheophODE, fixed=ka+ke+CL~1, random = pdDiag(ka+CL~1),
    + start=c(ka=0.5,ke=-2.5,CL=-3.2),
    + control=list(returnObject=TRUE,msVerbose=TRUE),
    + verbose=TRUE)
Flavor: r-release-windows-ix86+x86_64